genome.fa.s9614.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2129691

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  7  of  10  ( 1149 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395921--1396081	65	2.5	65	86	3	218	31	26	15	26	1.96
1395921--1396101	64	2.8	64	83	2	220	30	27	16	25	1.97
1401825--1401873	25	2.0	25	100	0	98	40	10	24	24	1.86
1403872--1403919	23	2.1	23	84	0	60	35	10	18	35	1.85
1404341--1404403	23	2.7	23	92	0	99	38	20	4	36	1.74
1404774--1404836	23	2.7	23	92	0	99	38	20	4	36	1.74
1403986--1405048	433	2.5	431	97	1	1978	38	12	7	41	1.71
1406028--1407507	198	7.5	198	96	2	2706	32	16	14	36	1.90
1407632--1407680	19	2.6	19	90	6	73	55	10	4	30	1.52
1409467--1409532	33	2.0	33	90	0	105	22	48	0	28	1.51
1409566--1409630	21	3.1	21	80	6	69	15	29	15	40	1.88
1411858--1411903	20	2.3	19	82	10	65	19	17	10	52	1.74
1412025--1412070	20	2.3	20	89	10	76	17	17	10	54	1.70
1412135--1412582	228	2.0	226	94	1	781	39	7	8	45	1.62
1414647--1414685	20	2.0	20	85	10	53	46	10	2	41	1.51
1418835--1418879	19	2.3	19	85	11	56	8	11	17	62	1.53
1420982--1421014	8	4.1	8	100	0	66	60	27	12	0	1.32
1427838--1427893	20	2.8	20	100	0	112	26	25	16	32	1.96
1431595--1431668	20	3.5	20	90	7	103	25	22	18	32	1.97
1445273--1445308	3	12.0	3	100	0	72	33	33	0	33	1.58
1446253--1446284	2	16.0	2	100	0	64	50	0	0	50	1.00
1447409--1447475	15	4.5	15	73	16	68	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459585--1459633	6	8.7	6	84	13	68	69	0	12	18	1.19
1460411--1460467	29	2.0	29	89	0	87	24	36	29	8	1.86
1460551--1460635	29	2.9	29	83	0	107	14	28	40	17	1.88
1466242--1466284	22	2.0	22	90	0	68	16	13	32	37	1.88
1476284--1476342	25	2.5	22	75	15	64	54	3	11	30	1.53
1476320--1476431	31	3.6	31	85	1	134	53	5	15	25	1.63
1485792--1485833	13	3.2	13	78	15	50	40	0	2	57	1.12
1485876--1485945	21	3.3	20	72	7	59	42	1	1	54	1.18
1485906--1485963	29	2.0	29	86	0	80	44	1	0	53	1.10
1486064--1486113	8	6.2	8	77	9	57	40	0	0	60	0.97
1486066--1486095	15	2.0	15	93	0	51	36	0	0	63	0.95
1486087--1486143	17	3.2	17	75	15	62	47	0	0	52	1.00
1486068--1486130	25	2.4	27	79	10	69	46	0	0	53	1.00
1487969--1487997	13	2.3	13	94	5	51	44	55	0	0	0.99
1488080--1488192	60	2.0	56	86	10	158	52	7	9	30	1.63
1488467--1488897	88	5.0	88	89	6	641	34	12	24	28	1.92
1488467--1488897	175	2.5	173	89	5	633	34	12	24	28	1.92
1489257--1489287	2	15.5	2	100	0	62	48	0	0	51	1.00
1502745--1502823	29	2.8	28	81	13	72	48	5	1	45	1.32
1503109--1503190	42	2.0	42	82	0	101	51	17	4	26	1.65
1505221--1505274	19	2.7	20	77	13	58	1	12	7	77	1.05
1505221--1505298	24	3.4	22	75	21	63	1	15	7	75	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505221--1505276	20	2.8	19	78	7	58	1	12	8	76	1.08
1505674--1505736	26	2.4	26	91	0	99	11	14	34	39	1.81
1505777--1505870	3	31.3	3	89	0	143	64	0	2	32	1.05
1506158--1506685	113	4.7	113	97	0	968	28	20	12	38	1.89
1507295--1507774	84	5.7	84	97	0	899	35	21	15	27	1.94
1508704--1508820	1	117.0	1	77	0	117	1	9	0	88	0.57
1508704--1508824	10	12.2	10	82	12	135	1	9	0	88	0.59
1508706--1508824	36	3.1	40	82	11	158	1	10	0	88	0.59
1518378--1518412	18	1.9	18	88	11	54	60	2	5	31	1.35
1520037--1520090	19	2.7	20	77	13	58	1	12	7	77	1.05
1520037--1520115	26	3.4	22	75	21	65	1	16	7	74	1.11
1520037--1520092	20	2.8	19	78	7	58	1	12	8	76	1.08
1520485--1520547	26	2.4	26	91	0	99	11	14	34	39	1.81
1520588--1520682	3	31.7	3	89	0	145	63	0	2	34	1.07
1520993--1521051	12	4.9	12	76	0	55	52	20	5	22	1.65
1520974--1521053	36	2.2	36	100	0	160	51	18	8	21	1.73
1522372--1522483	35	3.2	35	86	5	147	41	20	0	36	1.59
1523224--1523307	42	2.0	42	100	0	168	30	7	11	50	1.66
1523536--1523648	35	3.2	34	88	5	163	33	1	23	41	1.65
1524721--1524793	15	4.9	15	72	23	64	46	5	1	46	1.34
1524698--1524795	44	2.2	45	85	1	135	44	5	2	47	1.36
1524904--1524955	25	2.1	25	85	7	70	63	1	3	30	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1531296--1531351	15	3.9	14	73	15	51	71	1	0	26	0.96
1531296--1531351	22	2.5	22	77	8	60	71	1	0	26	0.96
1533190--1533215	12	2.2	12	100	0	52	26	19	46	7	1.77
1544559--1544629	16	4.6	15	81	10	72	39	2	0	57	1.13
1544514--1544590	23	3.4	22	72	21	61	27	5	0	67	1.12
1544582--1544630	2	25.0	2	86	12	66	44	4	0	51	1.20
1544664--1544728	17	3.5	17	71	18	58	26	6	1	66	1.24
1544970--1545036	26	2.6	24	77	11	71	14	2	7	74	1.16
1547680--1547710	10	3.0	10	95	4	53	77	3	19	0	0.90
1547693--1547746	13	4.1	13	81	11	65	77	3	16	1	1.00
1547687--1547747	25	2.4	26	86	10	83	75	3	18	3	1.08
1547695--1547747	28	2.0	25	89	10	79	75	3	16	3	1.10
1549404--1549475	37	1.9	37	85	0	99	26	20	12	40	1.88
1549491--1549716	36	6.4	36	77	10	225	26	19	13	39	1.89
1549404--1549682	101	2.8	101	83	2	317	28	18	12	39	1.88
1549511--1549770	138	1.9	138	86	0	376	26	20	12	40	1.88
1549674--1549831	65	2.4	67	88	3	221	32	22	8	36	1.84
1549674--1549846	67	2.6	67	86	3	208	32	21	8	36	1.84
1551841--1551880	14	2.7	14	84	7	53	32	2	0	65	1.06
1551931--1551992	17	3.3	17	70	23	52	25	6	1	66	1.25
1552265--1552324	26	2.3	27	80	8	70	13	5	6	75	1.18
1553987--1554034	17	2.6	19	77	12	55	66	0	2	31	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555791--1556372	160	3.7	156	81	8	546	30	19	4	45	1.70
1555836--1556335	160	3.2	159	82	7	576	30	18	4	46	1.70
1559948--1559973	11	2.4	11	100	0	52	38	0	0	61	0.96
1563467--1563562	22	4.5	22	89	5	146	14	25	32	28	1.95
1563529--1563563	18	1.9	18	94	0	61	20	20	34	25	1.96
1564763--1564796	16	2.1	16	100	0	68	35	11	20	32	1.89
1570229--1570283	22	2.5	22	93	0	92	16	29	27	27	1.97
1572039--1572620	288	2.0	288	94	0	1011	18	12	29	39	1.88
1591806--1592079	89	3.1	89	91	2	417	28	25	24	20	1.99
1600477--1600535	28	2.1	28	90	6	93	22	10	8	59	1.56
1601912--1601960	24	2.0	24	85	14	66	48	0	2	48	1.12
1601918--1601962	21	2.1	21	87	0	63	44	0	2	53	1.13
1601970--1602028	21	2.9	21	77	5	59	30	10	6	52	1.61
1603286--1603310	10	2.5	10	100	0	50	84	8	0	8	0.79
1604391--1604434	21	2.1	21	83	8	54	36	0	0	63	0.95
1605226--1605585	155	2.3	152	81	6	411	46	5	15	31	1.70
1605279--1605631	155	2.3	157	84	5	441	49	5	16	28	1.67
1606891--1606916	3	8.7	3	100	0	52	0	30	0	69	0.89
1609702--1609798	36	2.7	36	96	0	185	17	37	23	21	1.94
1617367--1617405	21	1.9	20	85	15	53	25	0	7	66	1.18
1617763--1618096	167	2.0	165	96	3	616	26	20	16	37	1.93
1627055--1627125	35	2.0	36	97	2	135	16	32	30	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627707--1627736	15	2.0	15	93	0	51	16	26	30	26	1.97
1633774--1633841	35	1.9	35	94	5	120	19	33	26	20	1.96
1634450--1634480	15	2.1	15	100	0	62	12	25	35	25	1.92
1637543--1637573	2	15.5	2	93	0	53	3	45	0	51	1.17
1638153--1638193	22	1.9	21	85	5	55	19	24	24	31	1.98
1644859--1644935	39	1.9	39	89	5	118	49	6	0	44	1.28
1645323--1645374	23	2.3	23	96	0	95	17	13	15	53	1.72
1645859--1645919	20	3.0	20	100	0	122	50	4	24	19	1.67
1652853--1652938	45	1.9	45	85	0	118	27	29	11	31	1.92
1654318--1654438	61	2.0	61	91	3	199	30	10	28	30	1.91

Tables:   1   2   3   4   5   6   7   8   9   10